D. rerio Gene: vsx1 - ENSDARG00000056292 - Danio rerio (zebrafish)

General information

Ensembl IDENSDARG00000056292
Namevsx1
Descriptionvisual system homeobox 1 homolog, chx10-like [Source:ZFIN;Acc:ZDB-GENE-990415-205]
OrganismDanio rerio (zebrafish)
Synonym(s)etid309864.17

Expression

Anat. entity IDAnatomical entityDevelopmental stage(s)Rank scoreExpression scoreSources
UBERON:0000966retina
  • ZFS:0000037Larval:Day 5
  • ZFS:0000033Hatching:Long-pec
  • ZFS:0000031Pharyngula:Prim-25
  • UBERON:0000066fully formed stage
  • ZFS:0000030Pharyngula:Prim-15
  • ZFS:0000032Pharyngula:High-pec
264
  • 264
  • 325
  • 2.18e3
  • 7.50e3
  • 1.17e4
  • 1.20e4
99.12
  • 99.12
  • 98.91
  • 92.70
  • 74.88
  • 60.84
  • 59.98
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0000970eye
  • ZFS:0000031Pharyngula:Prim-25
462
  • 462
98.46
  • 98.46
AEIR
  • AEIR
UBERON:0000922embryo
  • ZFS:0000033Hatching:Long-pec
  • ZFS:0000037Larval:Day 5
  • UBERON:0000068embryo stage
  • ZFS:0000031Pharyngula:Prim-25
  • ZFS:0000029Pharyngula:Prim-5
  • UBERON:0004707pharyngula stage
  • ZFS:0000030Pharyngula:Prim-15
  • ZFS:0000026Segmentation:14-19 somites
  • ZFS:0000025Segmentation:10-13 somites
1.25e3
  • 1.25e3
  • 1.79e3
  • 9.27e3
  • 1.15e4
  • 1.23e4
  • 1.30e4
  • 1.45e4
  • 1.59e4
  • 1.60e4
95.83
  • 95.83
  • 94.01
  • 68.96
  • 61.47
  • 58.70
  • 56.32
  • 51.45
  • 46.62
  • 46.53
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0002548larva
  • ZFS:0000035Larval:Protruding-mouth
  • ZFS:0000037Larval:Day 5
  • UBERON:0000069larval stage
2.41e3
  • 2.41e3
  • 3.88e3
  • 4.63e3
91.93
  • 91.93
  • 87.02
  • 84.49
AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0000468multi-cellular organism
  • ZFS:0000037Larval:Day 5
  • ZFS:0000033Hatching:Long-pec
  • ZFS:0000036Larval:Day 4
  • ZFS:0000040Larval:Days 14-20
  • ZFS:0000042Juvenile:Days 30-44
  • UBERON:0000068embryo stage
  • ZFS:0000030Pharyngula:Prim-15
  • ZFS:0000029Pharyngula:Prim-5
  • ZFS:0000026Segmentation:14-19 somites
2.43e3
  • 2.43e3
  • 3.46e3
  • 3.95e3
  • 7.55e3
  • 1.12e4
  • 1.48e4
  • 1.50e4
  • 1.69e4
  • 1.78e4
91.87
  • 91.87
  • 88.42
  • 86.77
  • 74.71
  • 62.49
  • 50.61
  • 49.67
  • 43.35
  • 40.38
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
CL:0005000spinal cord interneuron
  • ZFS:0000029Pharyngula:Prim-5
  • ZFS:0000026Segmentation:14-19 somites
  • ZFS:0000028Segmentation:26+ somites
  • ZFS:0000027Segmentation:20-25 somites
2.49e3
  • 2.49e3
  • 7.47e3
  • 1.49e4
  • 1.49e4
91.67
  • 91.67
  • 75.00
  • 50.00
  • 50.00
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
ZFA:0005233CiD (Danio)
  • ZFS:0000029Pharyngula:Prim-5
  • ZFS:0000026Segmentation:14-19 somites
  • ZFS:0000027Segmentation:20-25 somites
5.97e3
  • 5.97e3
  • 1.49e4
  • 1.49e4
80.00
  • 80.00
  • 50.00
  • 50.00
AEIR
  • AEIR
  • AEIR
  • AEIR
CL:0000748retinal bipolar neuron
  • ZFS:0000035Larval:Protruding-mouth
  • ZFS:0000033Hatching:Long-pec
  • ZFS:0000036Larval:Day 4
7.47e3
  • 7.47e3
  • 1.49e4
  • 1.49e4
75.00
  • 75.00
  • 50.00
  • 50.00
AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0003902retinal neural layer
  • ZFS:0000030Pharyngula:Prim-15
7.47e3
  • 7.47e3
75.00
  • 75.00
AEIR
  • AEIR
UBERON:0000955brain
  • ZFS:0000031Pharyngula:Prim-25
8.04e3
  • 8.04e3
73.08
  • 73.08
AEIR
  • AEIR
UBERON:0001791inner nuclear layer of retina
  • ZFS:0000037Larval:Day 5
  • ZFS:0000033Hatching:Long-pec
  • ZFS:0000035Larval:Protruding-mouth
  • ZFS:0000034Hatching:Pec-fin
  • ZFS:0000031Pharyngula:Prim-25
8.30e3
  • 8.30e3
  • 1.12e4
  • 1.22e4
  • 1.49e4
  • 1.49e4
72.22
  • 72.22
  • 62.49
  • 59.08
  • 50.00
  • 50.00
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0000465material anatomical entity
  • ZFS:0000035Larval:Protruding-mouth
  • ZFS:0000033Hatching:Long-pec
  • ZFS:0000025Segmentation:10-13 somites
8.96e3
  • 8.96e3
  • 8.96e3
  • 1.25e4
69.99
  • 69.99
  • 69.99
  • 58.31
AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0002192ventricular system choroidal fissure
  • ZFS:0000030Pharyngula:Prim-15
  • ZFS:0000031Pharyngula:Prim-25
  • ZFS:0000033Hatching:Long-pec
  • ZFS:0000032Pharyngula:High-pec
  • ZFS:0000027Segmentation:20-25 somites
  • ZFS:0000028Segmentation:26+ somites
  • ZFS:0000029Pharyngula:Prim-5
1.12e4
  • 1.12e4
  • 1.12e4
  • 1.24e4
  • 1.49e4
  • 1.49e4
  • 1.49e4
  • 1.49e4
62.49
  • 62.49
  • 62.49
  • 58.33
  • 49.99
  • 49.99
  • 49.99
  • 49.99
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0002240spinal cord
  • ZFS:0000030Pharyngula:Prim-15
  • ZFS:0000033Hatching:Long-pec
  • ZFS:0000031Pharyngula:Prim-25
  • ZFS:0000032Pharyngula:High-pec
  • ZFS:0000029Pharyngula:Prim-5
  • ZFS:0000027Segmentation:20-25 somites
  • ZFS:0000028Segmentation:26+ somites
1.15e4
  • 1.15e4
  • 1.18e4
  • 1.22e4
  • 1.23e4
  • 1.28e4
  • 1.42e4
  • 1.42e4
61.34
  • 61.34
  • 60.50
  • 59.06
  • 58.80
  • 57.11
  • 52.47
  • 52.47
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0002028hindbrain
  • ZFS:0000031Pharyngula:Prim-25
  • ZFS:0000030Pharyngula:Prim-15
  • ZFS:0000033Hatching:Long-pec
  • ZFS:0000032Pharyngula:High-pec
  • ZFS:0000029Pharyngula:Prim-5
  • ZFS:0000028Segmentation:26+ somites
  • ZFS:0000027Segmentation:20-25 somites
1.17e4
  • 1.17e4
  • 1.20e4
  • 1.20e4
  • 1.26e4
  • 1.28e4
  • 1.34e4
  • 1.35e4
60.84
  • 60.84
  • 59.98
  • 59.98
  • 57.87
  • 57.11
  • 54.97
  • 54.73
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
CL:0000540neuron
  • ZFS:0000030Pharyngula:Prim-15
  • ZFS:0000031Pharyngula:Prim-25
  • ZFS:0000032Pharyngula:High-pec
  • ZFS:0000033Hatching:Long-pec
  • ZFS:0000027Segmentation:20-25 somites
  • ZFS:0000028Segmentation:26+ somites
  • ZFS:0000029Pharyngula:Prim-5
1.21e4
  • 1.21e4
  • 1.21e4
  • 1.28e4
  • 1.29e4
  • 1.42e4
  • 1.42e4
  • 1.43e4
59.36
  • 59.36
  • 59.36
  • 57.13
  • 56.65
  • 52.47
  • 52.47
  • 52.24
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0001049neural tube
  • ZFS:0000029Pharyngula:Prim-5
  • ZFS:0000026Segmentation:14-19 somites
  • ZFS:0000027Segmentation:20-25 somites
  • ZFS:0000028Segmentation:26+ somites
1.30e4
  • 1.30e4
  • 1.34e4
  • 1.42e4
  • 1.42e4
56.49
  • 56.49
  • 54.97
  • 52.47
  • 52.47
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0005425presumptive neural retina
  • ZFS:0000029Pharyngula:Prim-5
1.31e4
  • 1.31e4
56.24
  • 56.24
AEIR
  • AEIR
UBERON:0010312immature eye
  • ZFS:0000026Segmentation:14-19 somites
  • ZFS:0000029Pharyngula:Prim-5
1.33e4
  • 1.33e4
  • 1.35e4
55.53
  • 55.53
  • 54.73
AEIR
  • AEIR
  • AEIR
UBERON:0000992female gonad
  • UBERON:0000066fully formed stage
1.38e4
  • 1.38e4
53.93
  • 53.93
AEIR
  • AEIR
UBERON:0004128optic vesicle
  • ZFS:0000027Segmentation:20-25 somites
  • ZFS:0000028Segmentation:26+ somites
  • ZFS:0000029Pharyngula:Prim-5
1.41e4
  • 1.41e4
  • 1.41e4
  • 1.41e4
52.92
  • 52.92
  • 52.92
  • 52.92
AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0006860swim bladder
  • UBERON:0000066fully formed stage
1.57e4
  • 1.57e4
47.47
  • 47.47
AEIR
  • AEIR
UBERON:0000307blastula
  • ZFS:0000011Blastula:1k-cell
  • ZFS:0000016Blastula:30%-epiboly
1.65e4
  • 1.65e4
  • 1.67e4
44.76
  • 44.76
  • 43.91
AEIR
  • AEIR
  • AEIR
UBERON:0019248early embryo
  • UBERON:0000107cleavage stage
1.74e4
  • 1.74e4
41.74
  • 41.74
AEIR
  • AEIR
UBERON:0002415tail
  • UBERON:0000066fully formed stage
1.75e4
  • 1.75e4
41.37
  • 41.37
AEIR
  • AEIR
UBERON:0002199integument
  • UBERON:0000066fully formed stage
1.77e4
  • 1.77e4
40.77
  • 40.77
AEIR
  • AEIR
UBERON:0007132head kidney
  • UBERON:0000066fully formed stage
1.87e4
  • 1.87e4
37.50
  • 37.50
AEIR
  • AEIR
UBERON:0000473testis
  • UBERON:0000066fully formed stage
2.05e4
  • 2.05e4
31.33
  • 31.33
AEIR
  • AEIR
UBERON:0000014zone of skin
  • UBERON:0000066fully formed stage
2.61e4
  • 2.61e4
12.49
  • 12.49
AEIR
  • AEIR
Sources
AAffymetrix
EEST
IIn Situ
RRNA-Seq
data
no data
Rank scores
3.25e4lightgrey: low confidence scores

important score variation

Rank scores of expression calls are normalized across genes, conditions and species. Low score means that the gene is highly expressed in the condition. Max rank score in all species: 4.10e4. Min rank score varies across species.

Expression scores of expression calls use the minimum and maximum Rank of the species to normalize the expression to a value between 0 and 100. Low score means that the gene is lowly expressed in the condition.

Sources of annotations to anatomy and development:
  • Affymetrix data: Bgee
  • EST data: Bgee
  • In situ hybridization data: ZFIN
  • RNA-Seq data: Bgee
Sources of raw data:

Cross-references

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